AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID044_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391615
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	dnaK	300	chaperone Hsp70; DNA biosynthesis; autoregulated heat shock proteins
#1	dnaJ	88	chaperone with DnaK; heat shock protein
#2	yfhE	95	orf, hypothetical protein
#3	b2529	27	orf, hypothetical protein
#4	yfhO	87	putative aminotransferase
#5	b2531	300	orf, hypothetical protein
#6	grpE	122	phage lambda replication; host DNA synthesis; heat shock protein; protein repair

Motif 1
GACAGCCGTTGCCTGATGCGACGCGTAATGCGTC	5	39	1
TACACTGTAGGCCTGATAAGACGCATTACGCGTC	5	58	0
TGTACCTGTTGTCGGATGCGGCGTGAACGCCATA	5	109	0
        AGGTCGGATAAGGCGTTCACGCCGCA	5	2	1
GGCAACGGCTGTCGGATGCGGCGTGAACGCCTTA	5	18	0
AGAACCCCAGGGCGGATATGGCGTTCACGCCGCA	5	93	1
GGTTTGTTTTACCTGATTCGCCGTTATCGCGGCG	2	50	1
ACTCGGGAATGTCAGACTTGACCCTGCTATGCAA	5	217	1
TCGCGATATGGCAGGACAAGACGTAAAATTGACA	0	86	0
GGCAGTTGAAACCAGACGTTTCGCCCCTATTACA	0	231	1
          *** ***  * ***
MAP Score: 25.2252

Motif 2
CCATTTAGTAGTCAACCGCAGTGAGTGAGTCTGCAAAAAAA	0	182	1
GGCGGAGAGGAAATTCCCCTTCGCCCGTGTCAGTATAATTA	1	26	0
TGCGCATACCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	10	1
TCTCAGGGCTGCGATCCGCCGCGATAACGGCGAATCAGGTA	2	59	0
GGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	5	11	1
CTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTC	5	39	0
TATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGAC	5	70	0
GGGCGGATATGGCGTTCACGCCGCATCCGACAACAGGTACA	5	102	1
       GTCTTACTTCACCTCAAACTCGCCCCTGCCCGGG	5	276	0
CATTGTCATCAATCTTCGCAACAAGGACCTCGGAAAA    	6	6	0
          GAATTTCTCCGCGTTTTTTTCGCATTCATCT	6	101	0
          *   *** *  **    ** *
MAP Score: 13.9272

Motif 3
AACGCCATATCCGCCCTGGGGTTCTGTACA	5	88	0
AAACTCGCCCCTGCCCGGGGTTTTTTATTG	5	265	0
AATTTCCTCTCCGCCCGTGCATTCATCTAG	1	52	1
CGGCGGATCGCAGCCCTGAGAATGTT    	2	79	1
GTCGTACATCCAGCCGGTAGCCTGATTCCT	4	59	1
CCGTGGTCGCCTGCGCGTGGGGTTTGTTTT	2	30	1
AATTCAGAATCAGGCCGGAGTGCTAAATAC	4	17	1
CCGCATCCGACAGCCGTTGCCTGATGCGAC	5	31	1
GCGCAGGCGACCACGGTGGGGTTATCGGTA	2	16	0
TAGTAGTCAACCGCAGTGAGTGAGTCTGCA	0	187	1
ACCACGTCATCAAGGGGGAGATGCAAAAAT	0	144	0
          **********
MAP Score: 12.8872

Motif 4
AAGAATGAATCGCAGCCAAGGCATTCATCAAAA	0	36	0
AGTAGTCAACCGCAGTGAGTGAGTCTGCAAAAA	0	188	1
CCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	18	1
TTACCTGATTCGCCGTTATCGCGGCGGATCGCA	2	58	1
GTGCTAAATACTCCGTAAACACGGTCGTACATC	4	36	1
GCGGCGTGAACGCCTTATCCGACCT        	5	2	0
AAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	5	19	1
CATTACGCGTCGCATCAGGCAACGGCTGTCGGA	5	36	0
GCGGCGTGAACGCCATATCCGCCCTGGGGTTCT	5	93	0
ATGGCGTTCACGCCGCATCCGACAACAGGTACA	5	110	1
 GTCTTACTTCACCTCAAACTCGCCCCTGCCCG	5	278	0
GCGTTTTTTTCGCATTCATCTCGCTAACTTCGC	6	89	0
          ******   ****
MAP Score: 12.6054

Motif 5
GCAGAAATTTCGCGATATGGCAGGACAAGACGTAAAATTGACAGC	0	84	0
CTGTAATAGGGGCGAAACGTCTGGTTTCAACTGCCCAATTTCATT	0	221	0
TACTGACACGGGCGAAGGGGAATTTCCTCTCCGCCCGTGCATTCA	1	32	1
CCCACGCGCAGGCGACCACGGTGGGGTTATCGGTATGCGCA    	2	6	0
CCGCGATAACGGCGAATCAGGTAAAACAAACCCCACGCGCAGGCG	2	37	0
GATGTACGACCGTGTTTACGGAGTATTTAGCACTCCGGCCTGATT	4	24	0
GGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGAT	5	11	1
AGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCG	5	29	0
AGAACCCCAGGGCGGATATGGCGTTCACGCCGCATCCGACAACAG	5	93	1
 GAATTTCTCCGCGTTTTTTTCGCATTCATCTCGCTAACTTCGCT	6	88	0
          ****     *  *     * * * *
MAP Score: 10.9469

Motif 6
ATTCATATAAAGAATGAATCGCAGCCAAGGCATTCATCAAA	0	37	0
GCGATATGGCAGGACAAGACGTAAAATTGACAGCAATTTTA	0	77	0
TAAATGGGGTCGTAAACCACGTCATCAAGGGGGAGATGCAA	0	148	0
TGAAACCAGACGTTTCGCCCCTATTACAGACTCACAACCAC	0	237	1
CCGTGTCAGTATAATTACCCGTTTATAGGGCGA        	1	2	0
TTGCCCCTAGATGAATGCACGGGCGGAGAGGAAATTCCCCT	1	47	0
GATAACCCCACCGTGGTCGCCTGCGCGTGGGGTTTGTTTTA	2	20	1
TTTGTTTTACCTGATTCGCCGTTATCGCGGCGGATCGCAGC	2	52	1
GGCCGGAGTGCTAAATACTCCGTAAACACGGTCGTACATCC	4	29	1
      AGGTCGGATAAGGCGTTCACGCCGCATCCGACAGC	5	4	1
CCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGT	5	40	0
AACCCCAGGGCGGATATGGCGTTCACGCCGCATCCGACAAC	5	95	1
        GTCTTACTTCACCTCAAACTCGCCCCTGCCCGG	5	277	0
ATTCATCTCGCTAACTTCGCTTATTATGGGGATCAGTTTCA	6	68	0
        GAATTTCTCCGCGTTTTTTTCGCATTCATCTCG	6	99	0
          ** *   * ***      ***
MAP Score: 9.41133

Motif 7
GATGACGTGGTTTACGACCCCATTTAGTAGTCAACCG	0	163	1
CTATTACAGACTCACAACCACATGATGACCGAATATA	0	257	1
    CTTTTTTAAATTGCCCCTAGATGAATGCACGGG	1	65	0
  TGCGCATACCGATAACCCCACCGTGGTCGCCTGCG	2	8	1
TTACGGAGTATTTAGCACTCCGGCCTGATTCTGAATT	4	17	0
GCCTACAGTGTACAGAACCCCAGGGCGGATATGGCGT	5	80	1
GACCCTGCTATGCAATACCCCCACTTTTACAATAAAA	5	236	1
ACTTTTACAATAAAAAACCCCGGGCAGGGGCGAGTTT	5	258	1
          *  *  *****  * **
MAP Score: 6.43192

Motif 8
CGTAAACCACGTCATCAAGGGGGAGATGCAAAAATTTT	0	141	0
GGGTAATTATACTGACACGGGCGAAGGGGAATTTCCTC	1	23	1
GCCCCTAGATGAATGCACGGGCGGAGAGGAAATTCCCC	1	48	0
GCATACCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	13	1
CTGATTCGCCGTTATCGCGGCGGATCGCAGCCCTGAGA	2	62	1
AAAAGAATTCAGAATCAGGCCGGAGTGCTAAATACTCC	4	12	1
TAAATACTCCGTAAACACGGTCGTACATCCAGCCGGTA	4	40	1
CAAGGAATCAGGCTACCGGCTGGATGTACGACCGTGTT	4	53	0
GTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTG	5	12	1
CAGTGTACAGAACCCCAGGGCGGATATGGCGTTCACGC	5	85	1
GGCGGATATGGCGTTCACGCCGCATCCGACAACAGGTA	5	103	1
TTTTACAATAAAAAACCCCGGGCAGGGGCGAGTTTGAG	5	260	1
TGAATGCGAAAAAAACGCGGAGAAATTC          	6	104	1
          *    ***** ***   *
MAP Score: 3.80724

Motif 9
CAATTTTTTGATGAATGCCTTGGCTGCGATTCATTCTT	0	31	1
AAATTTTTGCATCTCCCCCTTGATGACGTGGTTTACGA	0	142	1
GCGGAGAGGAAATTCCCCTTCGCCCGTGTCAGTATAAT	1	28	0
TTGCCCCTAGATGAATGCACGGGCGGAGAGGAAATTCC	1	50	0
GCGCATACCGATAACCCCACCGTGGTCGCCTGCGCGTG	2	11	1
ATCAGGTAAAACAAACCCCACGCGCAGGCGACCACGGT	2	29	0
CTCAGGGCTGCGATCCGCCGCGATAACGGCGAATCAGG	2	61	0
TACAGTGTACAGAACCCCAGGGCGGATATGGCGTTCAC	5	83	1
GACAACAGGTACAAACGCCACGATAAAAAAATGGCACT	5	130	1
CCTGCTATGCAATACCCCCACTTTTACAATAAAAAACC	5	239	1
CTTTTACAATAAAAAACCCCGGGCAGGGGCGAGTTTGA	5	259	1
          *  ****** **     *
MAP Score: 2.33404

Motif 10
GGCATTCATCAAAAAATTGTAATAAAAAGAAA	0	18	0
CTTTATATGAATAAAATTGCTGTCAATTTTAC	0	66	1
GCAAAAGCACAAAAAATTTTTGCATCTCCCCC	0	129	1
GTGAGTCTGCAAAAAAATGAAATTGGGCAGTT	0	206	1
        TAAAAAGAATTCAGAATCAGGCCG	4	2	1
ACGCCACGATAAAAAAATGGCACTGAAGGTTA	5	144	1
GATGAATGCGAAAAAAACGCGGAGAAATTC  	6	102	1
          *********  *
MAP Score: 0.665918

Motif 11
AGGGGAATTTCCTCTCCGCCCGTGCATTCATCTAGGGGCA	1	47	1
ATACCGATAACCCCACCGTGGTCGCCTGCGCGTGGGGTTT	2	15	1
TTTGTTTTACCTGATTCGCCGTTATCGCGGCGGATCGCAG	2	52	1
ACTCCGTAAACACGGTCGTACATCCAGCCGGTAGCCTGAT	4	45	1
TCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCT	5	13	1
CAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGG	5	41	1
GCGGATATGGCGTTCACGCCGCATCCGACAACAGGTACAA	5	104	1
          *     ** **   *** **
MAP Score: 0.198744